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Implement the simplest CountReads as a Picard CommandLineProgram #3

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akiezun opened this issue Dec 10, 2014 · 1 comment
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Implement the simplest CountReads as a Picard CommandLineProgram #3

akiezun opened this issue Dec 10, 2014 · 1 comment
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akiezun commented Dec 10, 2014

no filters, no -L, just count reads and make a regression test for it (with a small bam)
Can we 'register' a hellbender tool as a picard tool if we have it in a different package?
@akiezun akiezun changed the title Implement CountReads as a Picard CommandLineProgram Implement the simplest CountReads as a Picard CommandLineProgram Dec 10, 2014
@akiezun akiezun assigned akiezun and unassigned kshakir Dec 12, 2014
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akiezun commented Dec 12, 2014

done!

@akiezun akiezun closed this as completed Dec 12, 2014
@akiezun akiezun modified the milestone: Aye-aye Dec 15, 2014
@cmnbroad cmnbroad mentioned this issue Dec 8, 2015
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lbergelson pushed a commit that referenced this issue May 31, 2017
@akiezun
Merge pull request #3 from broadinstitute/lb_add_hellbender_dependency
61f52a8 
adding a build.gradle with a dependency on the hellbender snapshot
ldgauthier added a commit that referenced this issue Mar 25, 2019
@ldgauthier
# This is a combination of 3 commits.
b6bb4f2 
# This is the 1st commit message:

Tiny tool to take the smallest interval the spans the given intervals

# This is the commit message #2:

Sort spanning intervals
Start moving the spanning interval determinination into GenomicsDBImport

# This is the commit message #3:

Fix dictionary arg
ldgauthier added a commit that referenced this issue Aug 2, 2019
@ldgauthier
Item #3 -- "Address my maintenance concerns about
5bbf188 
AnnotationUtils.isAlleleSpecific()"
ldgauthier added a commit that referenced this issue Aug 5, 2019
@ldgauthier
Item #3 -- "Address my maintenance concerns about
beb11af 
AnnotationUtils.isAlleleSpecific()"
@AlijahArcher AlijahArcher mentioned this issue Feb 1, 2021
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rsasch added a commit that referenced this issue Jul 21, 2021
@rsasch
Add task for VAT validation #3 (#7360)
d336359
rsasch added a commit that referenced this issue Jul 21, 2021
@rsasch
manual add of vat val #3
373e486
lucidtronix added a commit that referenced this issue Jul 27, 2021
@lucidtronix
MRI pixel size (#3)
b06d668 
* consistent colors in plots and character model comparisons
This was referenced Mar 17, 2023
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@yuweibao15 yuweibao15 mentioned this issue Jun 21, 2024
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